BtaEX6047791 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106865903-106873009:-
Coord C1 exon
chr11:106872754-106873009
Coord A exon
chr11:106871492-106871604
Coord C2 exon
chr11:106865903-106865971
Length
113 bp
Sequences
Splice sites
3' ss Seq
CCCCTGCCCCTGTGATCCAGGCG
3' ss Score
7.45
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
Exon sequences
Seq C1 exon
GGCCCCCCAGGCGAGGTCATCCAGCCCCTGCCGATCCAGGCATCCAGGACCCGGCGGAATATCGATGCCAGCCAGCTGATGGACGACGCAGAGGGCGAGCAGTACATGGACTATGCGGATGGCATGGAGGAGATCTTCGGCTCGCTCAACTCCCTGAAGCTGGAGATCGAGCAGATGAAGCGGCCGCTGGGCACACCGCAGAACCCCGCACGCACCTGCAAAGACCTCCAGCTCTGCCACCCCGACTTCCCTGACG
Seq A exon
GCGAATACTGGGTGGATCCGAACCAAGGCTGCTCCCGGGACTCCTTCAAGGTCTACTGCAACTTCACGGCCGGGGGGTCAACGTGCGTCTTCCCCGACAAGAAGTCTGAAGGG
Seq C2 exon
GCCAGAATCACTTCTTGGCCCAAAGAAAACCCGGGTTCCTGGTTCAGTGAATTCAAGCGTGGCAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'72-78,'72-76,73-78=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.791 A=0.026 C2=0.130
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(14.3=9.3),PF0141013=COLFI=PU(12.7=31.4)
A:
PF0141013=COLFI=FE(17.5=100)
C2:
PF0141013=COLFI=FE(10.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAATATCGATGCCAGCCAG
R:
AGGAACCCGGGTTTTCTTTGG
Band lengths:
242-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]